RetrogeneDB ID: retro_sara_389

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_189989:12482..12764(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSSARG00000005720
• Aliases: None
• Description: None

Sequence

>retro_sara_389
ATGGCCGACGAAAAGCCCAAGGAAGGCGTCAAGACCGAGAACAACGATCATATTAACTTGAAGGTGGCGGGTCAGGATGG
TTCTGTGGTGCAGTTTAAGATTAAGAGGCATACGCCACTTAGTAAACTAGTGAAAGCCTATTGTGAACGACAGGGTTTGT
CAACGAGGCAGATCAGATTCCGATTTGATGGGCAGCCAATCAACGAAACAGACACACCTGCACAGTTGGAAATGGAGGAC
GAAGATACAATTGATGTGTTCCAGCAGCAGACAGGGGGCGTC

Alignment

ORF - retro_sara_389 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.91 %
• Parental protein coverage: 98.95 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MANEKPKGGVKTENNNNINLKVAGQDGSVVQFKIKRHTPLSKLMKASCERQDLSMKQIRFQLDRQPVNET
          MA.EKPK.GVKTENN..INLKVAGQDGSVVQFKIKRHTPLSKL.KA.CERQ.LS..QIRF..D.QP.NET
Retrocopy MADEKPKEGVKTENNDHINLKVAGQDGSVVQFKIKRHTPLSKLVKAYCERQGLSTRQIRFRFDGQPINET

Parental  DTRALLEMEDEDAVDVFQQQTGGV
          DT.A.LEMEDED..DVFQQQTGGV
Retrocopy DTPAQLEMEDEDTIDVFQQQTGGV

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Sorex araneus was not studied using RNA-Seq expression data.

ChIP-Seq

Sorex araneus was not studied using ChIP-Seq data.

EST

Sorex araneus was not studied using EST data.

TSS

Sorex araneus was not studied using FANTOM5 data.

Lab

retro_sara_389 was not experimentally validated.

Homology

Retrocopy orthology:

Sorex araneus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

Parental genes homology involve 8 parental genes, and 49 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000188612	2 retrocopies	retro_hsap_4036, retro_hsap_4095,
Gorilla gorilla	ENSGGOG00000023769	3 retrocopies	retro_ggor_101, retro_ggor_184, retro_ggor_2576,
Loxodonta africana	ENSLAFG00000025811	10 retrocopies	retro_lafr_104, retro_lafr_1222, retro_lafr_1240, retro_lafr_200, retro_lafr_254, retro_lafr_324, retro_lafr_36, retro_lafr_488, retro_lafr_858, retro_lafr_888,
Monodelphis domestica	ENSMODG00000007222	11 retrocopies	retro_mdom_1263, retro_mdom_1472, retro_mdom_1474, retro_mdom_1560, retro_mdom_1598, retro_mdom_1755, retro_mdom_237, retro_mdom_378, retro_mdom_517, retro_mdom_788, retro_mdom_986,
Oryctolagus cuniculus	ENSOCUG00000028195	5 retrocopies	retro_ocun_110, retro_ocun_136, retro_ocun_175, retro_ocun_22, retro_ocun_46,
Pongo abelii	ENSPPYG00000029777	2 retrocopies	retro_pabe_164, retro_pabe_84,
Sorex araneus	ENSSARG00000005720	8 retrocopies	retro_sara_156, retro_sara_158, retro_sara_175, retro_sara_389 , retro_sara_70, retro_sara_717, retro_sara_749, retro_sara_93,
Sorex araneus	ENSSARG00000008205	8 retrocopies	retro_sara_130, retro_sara_429, retro_sara_433, retro_sara_456, retro_sara_487, retro_sara_679, retro_sara_758, retro_sara_763,